SMTL ID : 3p9i.1 (1 other biounit)

Crystal structure of perennial ryegrass LpOMT1 complexed with S-adenosyl-L-homocysteine and sinapaldehyde

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.1: 19 residues within 4Å: Chain A: F.164, F.177, M.181, S.185, G.209, G.210, G.211, D.232, L.233, V.236, G.251, D.252, M.253, F.254, K.266, I.268, D.271, W.272 Ligands: SNY.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:S.185, A:G.209, A:G.211, A:L.233, A:D.252, A:D.252, A:M.253, A:K.266 Water bridges: A:T.215, A:K.266 Salt bridges: A:K.266 pi-Stacking: A:F.164 SAH.5: 19 residues within 4Å: Chain B: F.164, F.177, M.181, S.185, G.209, G.210, G.211, D.232, L.233, V.236, G.251, D.252, M.253, F.254, K.266, I.268, D.271, W.272 Ligands: SNY.6 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:S.185, B:G.209, B:G.211, B:L.233, B:D.252, B:D.252, B:M.253, B:K.266 Water bridges: B:T.215, B:K.266 Salt bridges: B:K.266 pi-Stacking: B:F.164

2 x SNY: (2E)-3-(4-hydroxy-3,5-dimethoxyphenyl)prop-2-enal(Non-covalent)

SNY.2: 14 residues within 4Å: Chain A: M.131, N.132, L.137, F.177, M.181, W.267, H.270, D.271, I.320, M.321, H.324, N.325 Chain B: S.29 Ligands: SAH.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.267, A:I.320 Hydrogen bonds: A:N.132, A:N.325, A:N.325 pi-Stacking: A:W.267 SNY.6: 13 residues within 4Å: Chain A: S.29 Chain B: M.131, N.132, L.137, F.177, M.181, W.267, H.270, D.271, I.320, M.321, N.325 Ligands: SAH.5 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:W.267, B:W.267, B:I.320 Hydrogen bonds: B:N.132, B:N.325, B:N.325

4 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.3: 6 residues within 4Å: Chain A: A.86, C.93, V.95, R.105, Y.107 Chain B: P.305 No protein-ligand interaction detected (PLIP) BME.4: 7 residues within 4Å: Chain A: C.299, G.313, V.314, V.317, A.355, N.356 Chain B: L.25 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:Q.26 Hydrogen bonds: A:A.355, A:N.356 BME.7: 7 residues within 4Å: Chain A: P.305, F.315 Chain B: R.83, C.93, L.94, V.95, R.105 No protein-ligand interaction detected (PLIP) BME.8: 6 residues within 4Å: Chain A: L.25 Chain B: W.267, C.299, V.317, A.355, N.356 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:A.355

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Louie, G.V. et al., Structure-Function Analyses of a Caffeic Acid O-Methyltransferase from Perennial Ryegrass Reveal the Molecular Basis for Substrate Preference. Plant Cell (2010)

Release Date

2011-01-12

Peptides

Caffeic acid O-methyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Caffeic acid O-methyltransferase

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